Thank you for connecting with us once again, JB94. If you are using Merchant Service, you will be allowed to receive partial payments. However, our QuickBooks system doesn't allow this to happen currently. Instead, it marks the invoice as paid in full. Therefore, the customer would need to pay in full.  

A workaround could be to divide the invoice into multiples to account for each partial payment (basically having separate invoices). I recommend browsing through this article that explains how to record an invoice payment for your edification.

If you have any questions or need clarification on partial payments, please let me know below. We are here to help! Take care, and enjoy your weekend.